Genome Analysis Toolkit

Variant Discovery in High-Throughput Sequencing Data

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Developed in the Data Sciences Platform at the Broad Institute, the toolkit offers a wide variety of tools with a primary focus on variant discovery and genotyping. Its powerful processing engine and high-performance computing features make it capable of taking on projects of any size. Learn more

GetPileupSummaries Empty File Output

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    SkyWarrior

    Hi William Miklavcic

    Looks like your archnemesis lies with your heap size.

    Exception in thread "main" java.lang.OutOfMemoryError: Java heap space

    It is better if you can set java options with higher heapsize to compasate for this tool. 

    Regards. 

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    William Miklavcic

    Thank you very much- can't believe I missed that. 

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